Allometric Diet Breadth Model (ADBM)

Overview

Feeding ‘rules’ are based on the energetic content of species, which is theoretically and conceptually embedded within the foraging ecology space (Petchey et al. 2008)

Methods

Example

using CSV
using DataFrames
using SpeciesInteractionNetworks

include("lib/adbm/adbm.jl")
include("lib/internals.jl")

# set seed
import Random
Random.seed!(66)

topology = topo_df();

# get the name of all communities (still need their richness)
matrix_names = readdir(joinpath("data", "raw"))
matrix_names = replace.(matrix_names, ".csv" => "")

for i in eachindex(matrix_names)
    
    file_name = matrix_names[i]
    df = DataFrame(
        CSV.File.(
            joinpath("data", "raw", "$file_name.csv"),
        ),
    )

    # were going to create some interim bodymass values
    bodymass = rand(Truncated(Normal(0, 1), 0, 1), nrow(df))
    # create some mock abundance/biomass values
    biomass = rand(Truncated(Normal(0, 1), 0, 10), nrow(df))

    d = model_summary(df, file_name, "adbm"; bodymass = bodymass, biomass = biomass)

    push!(topology, d)

end

# write summaries as .csv
CSV.write("data/processed/topology_adbm.csv", topology)

References

Petchey, Owen L., Andrew P. Beckerman, Jens O. Riede, and Philip H. Warren. 2008. “Size, Foraging, and Food Web Structure.” Proceedings of the National Academy of Sciences 105 (11): 4191–96. https://doi.org/10.1073/pnas.0710672105.